ANALIZA ZASTUPLJENOSTI PONOVAKA SA PRIMENOM U PREDVIDJANJU T-ĆELIJSKIH EPITOPA

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ANALIZA ZASTUPLJENOSTI PONOVAKA SA PRIMENOM U PREDVIDJANJU T-ĆELIJSKIH EPITOPA

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dc.contributor.advisor Mitić, Nenad
dc.contributor.author Jelović, Ana
dc.date.accessioned 2022-08-04T11:39:02Z
dc.date.available 2022-08-04T11:39:02Z
dc.date.issued 2022
dc.identifier.uri http://hdl.handle.net/123456789/5442
dc.description.abstract n the first part of this dissertation different repeat types are defined as well as repeats that satisfy motif masks. A method for precise repeat finding in input sequences of arbitrary length has been described. As the input sequences can be very long, the number of found repeats can also be large. For that reason it is important that the method also includes filtering found repeats based on the expected number of their occurrences. The method was first applied to protein sequences in which experimentally confirmed T-cell epitopes from the IEDB database were registered. Association rules were applied to the found repeats in order to construct a model that would enable the prediction of the positions of T-cell epitopes in protein sequences. In this way, it would indicate to researchers a region in the protein sequence where an epitope can be expected with high confidence. In the case of T-cell epitopes, a large number of rules with high confidence was found. These rules can be considered as reliable predictors of the position of T-cell epitopes within the protein sequences. Based on the results found, association rules were formed that characterize the epitopes and the repeats associated with them in more detail. As a large number of results were found, only their part is presented in this disser- tation. On the basis of the strings that determine the repeat, a motif mask that the repeat needs to satisfy was searched for. The entire procedure was applied to both direct non-complementary repeats and indirect non-complementary repeats. With similar results, the entire procedure was applied to B-cell epitopes on data from the IEDB database. Data on experimentally confirmed short linear motifs were taken from the ELM database. In protein sequences where short linear motifs were registered, repeats were searched for and association rules were applied to them. The rules with high confidence have been singled out in particular. On the basis of the results found, motif masks that repeats with high confidence would satisfy were searched for. en_US
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dc.description.provenance Made available in DSpace on 2022-08-04T11:39:02Z (GMT). No. of bitstreams: 1 Ana_Jelovic_tekst_doktorata.pdf: 6127093 bytes, checksum: b5d8ed0fba16d488117f3928a607f80d (MD5) Previous issue date: 2022 en
dc.language.iso sr en_US
dc.publisher Beograd en_US
dc.title ANALIZA ZASTUPLJENOSTI PONOVAKA SA PRIMENOM U PREDVIDJANJU T-ĆELIJSKIH EPITOPA en_US
mf.author.birth-date 1973-07-30
mf.author.birth-place Beograd en_US
mf.author.birth-country Srbija en_US
mf.author.residence-state Srbija en_US
mf.author.citizenship Srpsko en_US
mf.author.nationality Srpkinja en_US
mf.subject.area Computer Science en_US
mf.subject.keywords repeats, T-cell epitopes, short linear motifs, association rules en_US
mf.subject.subarea Bioinformatics, Data mining en_US
mf.contributor.committee Malkov, Saša
mf.contributor.committee Kovačević, Jovana
mf.contributor.committee Ognjanović, Zoran
mf.university.faculty Mathematical faculty en_US
mf.document.references 35 en_US
mf.document.pages 449 en_US
mf.document.location Beograd en_US
mf.document.genealogy-project No en_US
mf.university Belgrade University en_US

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